TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3695/-:

update plot	correlation	link to info on gene
Rv3689/-	(cc=0.5796)	info on Rv3689/-
Rv3694c/-	(cc=0.5624)	info on Rv3694c/-
Rv2586c/secF	(cc=0.5074)	info on Rv2586c/secF
Rv2439c/proB	(cc=0.4903)	info on Rv2439c/proB
Rv1387/PPE20	(cc=0.4572)	info on Rv1387/PPE20
Rv1914c/-	(cc=0.4458)	info on Rv1914c/-
Rv3517/-	(cc=0.4453)	info on Rv3517/-
Rv2825c/-	(cc=0.4444)	info on Rv2825c/-
Rv0309/-	(cc=0.4388)	info on Rv0309/-
Rv2585c/-	(cc=0.4307)	info on Rv2585c/-

Correlation of Rv3695/- with Rv2825c/-

Normalized LFCs for Rv3695/-:
(description and provenance of datasets)

	Rv3695/-	Rv2825c/-
Fe_supp_jason_reseq	-0.86	0.169
low_pH_jason_reseq	-2.494	0.741
NO_jason_reseq	-1.788	-1.121
B6_jason_reseq	-1.093	-1.759
MHCII_jason_reseq	-0.8	-1.171
Isoniazid02	-0.787	0.281
Rifampicin4	0.119	1.394
Ethambutol3	0.829	0.34
Meropenem3	0.603	1.792
Vancomycin16	0.194	0.629
Rv2680_day32	-0.154	0.0
H37Rv_KO_MarP	-1.541	0.279
hypoxia_3wks	0.163	0.961
hypoxia_6wks	0.572	0.384
glycerol	-1.725	-0.184
cholesterol	-0.747	0.696
AJ	0.993	-0.212
Bibs02	-0.384	0.294
Bibs02c	1.558	-0.399
BL6	1.26	2.513
BL6a	1.501	1.6
BXD01	0.908	1.292
BXD010	0.548	0.385
BXD011	-0.332	0.68
BXD03	1.2	0.856
BXD04	0.945	1.792
BXD05	0.67	2.578
BXD06	0.351	1.963
BXD07	0.568	2.353
BXD08	0.186	1.837
BXD09	0.277	1.941
CAST	0.859	1.346
CCcont	0.793	1.146
DS01	-0.7	-0.45
DS02	-1.122	0.792
DS04	0.849	3.195
DS0c	-0.933	0.506
GP01	1.207	-0.188
GP02	0.442	-0.159
GP0c	1.297	0.391
NOD	-0.625	0.361
NZO	1.348	0.465
PWK	2.835	0.315
H37Rv_KO_CtpC	1.252	1.957
H37Rv_KO_CtpD	-0.398	-0.241
H37Rv_KO_Rv1272	0.146	1.195
H37Rv_KO_SugABC	1.541	4.445
H37Rv_KO_MbtN	1.843	1.122
Trans05	-0.703	0.764
macrophage_unactivated	-0.382	-1.253
IL1	0.184	0.922
Rapamycin	-0.479	1.086
Tcell	-0.212	-0.267
GMCSF	-0.084	0.987
IFNab	1.584	0.387
IFNg	0.192	0.275
IFNg_GMCSF1	0.842	-0.534
Rv1432_day32	-0.819	0.0
Rv1565c_day32	-0.746	0.0
secA2_input	-2.552	-1.327
delta_Rv3594	1.231	1.53
delta_Rv3717	0.714	1.403
delta_Rv3811	0.526	3.557
delta_Rv0954	0.18	2.149
PonA1	1.809	1.526
EccD1_KO	1.02	1.108
EspI_KO	-0.245	0.0
PE35_KO	0.236	3.436
PPE68_KO	0.506	4.278
glycerol2	-1.103	-0.413
lignocerate	-0.306	-0.812
oleate	0.839	-0.077
phosphatidylcholine	-0.496	-0.266
acetate	0.068	-0.928
glucAc	-0.089	-2.419
Rv0950ko	0.582	0.0
Rv1096ko	1.99	2.135
Rv3684ko	2.109	2.414
delta_otsA_trehalose	-0.457	-2.372